Atlas level scRNAseq analysis reveals the functional landscape of cell types

Harris, Benjamin D (October 2021) Atlas level scRNAseq analysis reveals the functional landscape of cell types. PhD thesis, Cold Spring Harbor Laboratory.

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Abstract

Characterizing the diversity and function of the many cells that make up living organisms is an essential aspect of cell biology. This thesis uses meta-analysis of large-scale single cell RNA sequencing (scRNAseq) data to both explore the diversity of cell types and the functional landscape that defines them. My methodology is based on meta-analysis because it serves to find robust signatures across datasets with significant technical variation, thereby determining what signatures and properties are likely to generalize to new data. After the introduction, I present two vignettes that explore the functional landscape of hematopoiesis Chapter 2 and neurons Chapter 3 using this philosophy. In Chapter 4 I summarize my results and provide a perspective on how the field can build on this work. Finally, Appendix A and B are two manuscripts I contributed to that are relevant, but not central to this work.

Item Type: Thesis (PhD)
Subjects: bioinformatics > genomics and proteomics
organs, tissues, organelles, cell types and functions > cell types and functions > cell types > hematopoietic cell
organs, tissues, organelles, cell types and functions > cell types and functions > cell types > hematopoietic cell
organs, tissues, organelles, cell types and functions > cell types and functions > cell types > hematopoietic cell
organs, tissues, organelles, cell types and functions > cell types and functions > cell types > neurons
organs, tissues, organelles, cell types and functions > cell types and functions > cell types > neurons
organs, tissues, organelles, cell types and functions > cell types and functions > cell types > neurons
Investigative techniques and equipment > scRNAseq
bioinformatics > genomics and proteomics > genetics & nucleic acid processing > transcriptomes
CSHL Authors:
Communities: CSHL labs > Gillis Lab
Depositing User: Sasha Luks-Morgan
Date: 28 October 2021
Date Deposited: 05 Nov 2021 17:56
Last Modified: 08 Nov 2021 21:02
URI: https://repository.cshl.edu/id/eprint/40411

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